GgaINT1009601 @ galGal4
Intron Retention
Gene
ENSGALG00000001262 | CLIC4
Description
chloride intracellular channel 4 [Source:HGNC Symbol;Acc:HGNC:13518]
Coordinates
chr23:2461216-2462301:-
Coord C1 exon
chr23:2462195-2462301
Coord A exon
chr23:2461398-2462194
Coord C2 exon
chr23:2461216-2461397
Length
797 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
TTGTTGCTTCTTCTCCTCAGGCT
3' ss Score
9.34
Exon sequences
Seq C1 exon
ATACCTGAAACTTTCTCCAAAGCACCCCGAGTCCTACACTGCTGGAATGGATATTTTTGCCAAATTTTCTGCATTTATCAAAAATTCCAGACCGGAGGCTAACGAAG
Seq A exon
GTAGGTCCCTGCAGTCAGTGCTGTGCTCACATCGCAGCGTTTGCTCAGTGTTATTTGCAACCCATGCGATCTTTCCATTGCACTGAGTTGCAAAACAGCTGCTACAAAAGACGAGGAGGGAACAGTGACTTTAACACAGAGGTATTCCAGCGTTCTGTTCTGCCCTGGCAATGAATGGGCGTGTTCTGGTGTGTGTGTGTGAGTGTGTGTGTGTGTGTGTGTGAGTATGTGTGTGTGTCAGGGTGGCAGAACAGCTGTGCACTTCCCCTTGCTGAGAAATGCTTTTTGTTTCTCTGGGTTCTGCTGCCCTCTGCTGCTGTATGTGCAGAACCTCCACAGCTGCATCCCTCAGTTGTGCCTTGCAGCTGAGCATGTGACATTAAAGAGATTACGTTTCAATGAATAGCTTAGCTTGATGCTAATTACTTTAAGCCAGTTAGGAAAAGTCTTAAGAAACTGACATAAGCCACTTTTTAAACCAAAAATAAACACTCTTAGAGCACTTTTAAAGTGCTGCGAGCTCATGTGCAAACCAACTTTTAGATAGCATGCATCCGTGTGATGTTAAAGGGATTCCAGTCCTGTTTCAGCGTTCCAAGCCACCACAAGTGAGTTCCAAGTCAGCACCAGCAGTGGTGTTGCTGCAGAAGTTGTGCAAGGACCAGCAGTCCTTCGCTGTGCCACTGTCCTGGGGAGCACAGTGATGTGGATTTGGTATTTCAGACCTGGTGTCCCTGTTCAAAAGCTGAATTTGCTTTGAAATTTGCTTGCTGTAGTTTGTTGCTTCTTCTCCTCAG
Seq C2 exon
GCTTAGAACGTGGCCTCTTGAAAACCCTGCAGAAATTGGATGAGTACCTGAACTCTCCTCTCCCTGACGAGATAGATGAGAACAGCATGGAGGATATTACAGTTTCTACCCGCAAGTTTTTGGATGGCAATGAGATGACATTAGCAGACTGCAACCTGCTGCCCAAACTACACATTGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001262:ENSGALT00000001916:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.115
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=FE(25.7=100)
A:
NA
C2:
PF134101=GST_C_2=FE(42.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGAAACTTTCTCCAAAGCACC
R:
CTTCACAATGTGTAGTTTGGGCA
Band lengths:
286-1083
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]